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* [http://schubert.bio.uniroma1.it/pymod/index.html PyMod], a simple graphical interface between PyMOL and other tools like BLAST, ClustalW, Muscle, CEalign and MODELLER ([http://www.youtube.com/watch?v=VCcqEU0-xrU/ Workflow Example Video]).
* [http://schubert.bio.uniroma1.it/pymod/index.html PyMod], a simple graphical interface between PyMOL and other tools like BLAST, ClustalW, Muscle, CEalign and MODELLER ([http://www.youtube.com/watch?v=VCcqEU0-xrU/ Workflow Example Video]).
* [http://ssu.ac.ir/fileadmin/templates/fa/daneshkadaha/daneshkade_darosazi/group/shimi/apps/Modelface.exe Modelface], an interface to Modeller 9.10 and higher, Capable of making single point mutaion in a PDB structure, password=yazdpharmacy
* [http://ssu.ac.ir/fileadmin/templates/fa/daneshkadaha/daneshkade_darosazi/group/shimi/apps/Modelface.exe Modelface], an interface to Modeller 9.10 and higher, Capable of making single point mutaion in a PDB structure, password=yazdpharmacy
* [http://structuropedia.org Structuropedia], a simply yet powerful and versatile web interface with capabilities for modeling, transformation and rendering of proteins. Powered by a wide array of engines including Biopython, Blast, Clustal, JSmol, Modeller, Refsense and VMD.     
* [http://structuropedia.org Structuropedia], a simply yet powerful and versatile web interface with capabilities for modeling and rendering of proteins. Powered by a wide array of engines including Biopython, Blast, Clustal, JSmol, Modeller, Refsense and VMD.     


=== Usage of Modeller in other systems ===
=== Usage of Modeller in other systems ===

Revision as of 17:38, 1 July 2014

Links to other resources and people using Modeller

(!) Please edit this page to link to your own resources or interfaces using Modeller, so that Modeller users can easily find them!

Graphical and web interfaces

  • MINT, a graphical interface to simple Modeller comparative modeling functions
  • EasyModeller, a windows based GUI (graphical user interface) to Modeller developed using PerlTk
  • SWIFT MODELLER, a JAVA based GUI to MODELLER
  • Chimera has a Modeller interface in version 1.5 or later. A video tutorial is also available.
  • PyMod, a simple graphical interface between PyMOL and other tools like BLAST, ClustalW, Muscle, CEalign and MODELLER (Workflow Example Video).
  • Modelface, an interface to Modeller 9.10 and higher, Capable of making single point mutaion in a PDB structure, password=yazdpharmacy
  • Structuropedia, a simply yet powerful and versatile web interface with capabilities for modeling and rendering of proteins. Powered by a wide array of engines including Biopython, Blast, Clustal, JSmol, Modeller, Refsense and VMD.

Usage of Modeller in other systems

  • Friend, an integrated multiple structure visualization and multiple sequence alignment application (see "extended capabilities")
  • Structure SNP, which compares structural nsSNP distributions in many proteins or protein complexes, and allows mapping onto protein structures by comparative modeling with Modeller
  • M4T, Multiple Mapping Method with Multiple Templates: Comparative protein structure modeling by combining of multiple templates and optimizing sequence-to-structure alignments
  • MMM, Multiple Mapping Method: a novel approach to the sequence-to-structure alignment problem in comparative protein structure modeling
  • ArchPred, template based loop structure prediction server that delivers a full comparative model with the predicted loop using Modeller
  • Flex-EM, a method for protein structure fitting and refinement guided by cryoEM density.

Frameworks and other interfaces

  • Biskit, a modular, object-oriented Python library for structural bioinformatics research.